You are here

Bioinformatics DOI:10.1093/bioinformatics/bti298

DNA polymorphism detector: an automated tool that searches for allelic matches in public databases for discrepancies found in clone or cDNA sequences.

Publication TypeJournal Article
Year of Publication2005
AuthorsChang, C-Y, LaBaer, J
JournalBioinformatics
Volume21
Issue9
Pages2133-5
Date Published2005 May 01
ISSN1367-4803
KeywordsCloning, Molecular, Database Management Systems, Databases, Nucleic Acid, DNA Mutational Analysis, DNA, Complementary, Gene Frequency, Information Storage and Retrieval, Polymorphism, Genetic, Sequence Alignment, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Software, User-Computer Interface
Abstract

SUMMARY: DNA polymorphism detector (DPD) is a new web application developed to help automate the process of cDNA clone validation. DPD identifies and highlights discrepancies between any cDNA clone sequence and its expected reference sequence. To determine if these differences correspond to natural genetic polymorphisms (versus artifacts introduced during clone production or evaluation), DPD uses the discrepancies, along with flanking sequences, to search GenBank for identical matching strings. If matching DNA sequences are found, DPD verifies that they are from the same gene. The application then reports the discrepancy as a polymorphism along with the corresponding GenBank reference information.

AVAILABILITY: DPD is currently hosted by the Harvard Institute of Proteomics at http://www.hip.harvard.edu

URLhttp://bioinformatics.oxfordjournals.org/cgi/pmidlookup?view=long&pmid=15695424
DOI10.1093/bioinformatics/bti298
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/15695424?dopt=Abstract

Alternate JournalBioinformatics
PubMed ID15695424